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Literature DB >> 22493203

Genome sequence of Amycolatopsis sp. strain ATCC 39116, a plant biomass-degrading actinomycete.

Jennifer R Davis¹, Lynne A Goodwin, Tanja Woyke, Hazuki Teshima, David Bruce, Chris Detter, Roxanne Tapia, Shunsheng Han, James Han, Sam Pitluck, Matt Nolan, Natalia Mikhailova, Miriam L Land, Jason K Sello.

Abstract

We announce the availability of a high-quality draft of the genome sequence of Amycolatopsis sp. strain 39116, one of few bacterial species that are known to consume the lignin component of plant biomass. This genome sequence will further ongoing efforts to use microorganisms for the conversion of plant biomass into fuels and high-value chemicals.

Entities: Chemical Species

Mesh：

Substances：
DNA, Bacterial

Year: 2012 PMID： 22493203 PMCID： PMC3347045 DOI： 10.1128/JB.00186-12

Source DB: PubMed Journal: J Bacteriol ISSN： 0021-9193 Impact factor: 3.490

14 in total

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2. GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes.

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Journal: Nat Methods Date: 2010-05-02 Impact factor: 28.547

3. Demethylation of Veratrole by Cytochrome P-450 in Streptomyces setonii.

Authors: J B Sutherland
Journal: Appl Environ Microbiol Date: 1986-07 Impact factor: 4.792

Review 4. Actinomycetes and lignin degradation.

Authors: Ralph Kirby
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Authors: Daniel R Zerbino; Ewan Birney
Journal: Genome Res Date: 2008-03-18 Impact factor: 9.043

Review 6. Genomics of cellulosic biofuels.

Authors: Edward M Rubin
Journal: Nature Date: 2008-08-14 Impact factor: 49.962

7. Base-calling of automated sequencer traces using phred. II. Error probabilities.

Authors: B Ewing; P Green
Journal: Genome Res Date: 1998-03 Impact factor: 9.043

8. Consed: a graphical tool for sequence finishing.

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Journal: Genome Res Date: 1998-03 Impact factor: 9.043

9. Discovery and characterization of heme enzymes from unsequenced bacteria: application to microbial lignin degradation.

Authors: Margaret E Brown; Mark C Walker; Toshiki G Nakashige; Anthony T Iavarone; Michelle C Y Chang
Journal: J Am Chem Soc Date: 2011-06-14 Impact factor: 15.419

10. Prodigal: prokaryotic gene recognition and translation initiation site identification.

Authors: Doug Hyatt; Gwo-Liang Chen; Philip F Locascio; Miriam L Land; Frank W Larimer; Loren J Hauser
Journal: BMC Bioinformatics Date: 2010-03-08 Impact factor: 3.169

13 in total

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Journal: Antimicrob Agents Chemother Date: 2013-12-16 Impact factor: 5.191

2. Genetics and Genomics of the Genus Amycolatopsis.

Authors: Rashmi Kumari; Priya Singh; Rup Lal
Journal: Indian J Microbiol Date: 2016-05-02 Impact factor: 2.461

3. Insights into the degradation capacities of Amycolatopsis tucumanensis DSM 45259 guided by microarray data.

Authors: Natalia Bourguignon; Rafael Bargiela; David Rojo; Tatyana N Chernikova; Sara A López de Rodas; Jesús García-Cantalejo; Daniela J Näther; Peter N Golyshin; Coral Barbas; Marcela Ferrero; Manuel Ferrer
Journal: World J Microbiol Biotechnol Date: 2016-10-26 Impact factor: 3.312

4. Development of an Improved System for the Generation of Knockout Mutants of Amycolatopsis sp. Strain ATCC 39116.

Authors: Florian Meyer; Hilke Pupkes; Alexander Steinbüchel
Journal: Appl Environ Microbiol Date: 2017-01-17 Impact factor: 4.792

5. Bacillus aryabhattai BA03: a novel approach to the production of natural value-added compounds.

Authors: Alicia Paz; Julia Carballo; María José Pérez; José Manuel Domínguez
Journal: World J Microbiol Biotechnol Date: 2016-08-25 Impact factor: 3.312

6. Investigation of the Amycolatopsis sp. strain ATCC 39116 vanillin dehydrogenase and its impact on the biotechnical production of vanillin.

Authors: Christian Fleige; Gunda Hansen; Jens Kroll; Alexander Steinbüchel
Journal: Appl Environ Microbiol Date: 2012-10-12 Impact factor: 4.792

7. Characterization of two Streptomyces enzymes that convert ferulic acid to vanillin.

Authors: Wenwen Yang; Hongzhi Tang; Jun Ni; Qiulin Wu; Dongliang Hua; Fei Tao; Ping Xu
Journal: PLoS One Date: 2013-06-28 Impact factor: 3.240

8. Complete genome sequence and comparative genomic analyses of the vancomycin-producing Amycolatopsis orientalis.

Authors: Li Xu; He Huang; Wei Wei; Yi Zhong; Biao Tang; Hua Yuan; Li Zhu; Weiyi Huang; Mei Ge; Shen Yang; Huajun Zheng; Weihong Jiang; Daijie Chen; Guo-Ping Zhao; Wei Zhao
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Authors: Ayyappa Kumar Sista Kameshwar; Wensheng Qin
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10. Reducing biomass recalcitrance by heterologous expression of a bacterial peroxidase in tobacco (Nicotiana benthamiana).

Authors: Ayalew Ligaba-Osena; Bertrand Hankoua; Kay DiMarco; Robert Pace; Mark Crocker; Jesse McAtee; Nivedita Nagachar; Ming Tien; Tom L Richard
Journal: Sci Rep Date: 2017-12-06 Impact factor: 4.379